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List of works by Junji Iwahara

A Unique and Simple Approach to Improve Sensitivity in 15N-NMR Relaxation Measurements for NH₃⁺ Groups: Application to a Protein-DNA Complex.

scientific article published on 15 August 2017

A chemical approach for site-specific identification of NMR signals from protein side-chain NH₃⁺ groups forming intermolecular ion pairs in protein-nucleic acid complexes

scientific article published on 19 February 2015

A helix-turn-helix structure unit in human centromere protein B (CENP-B).

scientific article

Accurate Determination of Leucine and Valine Side-chain Conformations using U-[15N/13C/2H]/[1H-(methine/methyl)-Leu/Val] Isotope Labeling, NOE Pattern Recognition, and Methine Cγ–Hγ/Cβ–Hβ Residual Dipolar Couplings: Application to the 34-kDa

scientific article published on 01 October 2005

An Efficient NMR Experiment for Analyzing Sugar-Puckering in Unlabeled DNA: Application to the 26-kDa Dead Ringer–DNA Complex ⬇️

scientific article published on December 1, 2001

Asymmetrical roles of zinc fingers in dynamic DNA-scanning process by the inducible transcription factor Egr-1.

scientific article

Balancing between affinity and speed in target DNA search by zinc-finger proteins via modulation of dynamic conformational ensemble

scientific article

Changes in conformational dynamics of basic side chains upon protein-DNA association

scientific article published on 10 June 2016

Characterization of nonspecific protein-DNA interactions by 1H paramagnetic relaxation enhancement.

scientific article

Compensating increases in protein backbone flexibility occur when the Dead ringer AT-rich interaction domain (ARID) binds DNA: a nitrogen-15 relaxation study.

scientific article

Crystal structure of the CENP-B protein-DNA complex: the DNA-binding domains of CENP-B induce kinks in the CENP-B box DNA.

scientific article

Detecting Counterion Dynamics in DNA-Protein Association

scientific article published on 03 December 2019

Detecting transient intermediates in macromolecular binding by paramagnetic NMR.

scientific article

Direct Observation of Enhanced Translocation of a Homeodomain between DNA Cognate Sites by NMR Exchange Spectroscopy

scientific article published on 01 January 2006

Direct Observation of the Ion-Pair Dynamics at a Protein–DNA Interface by NMR Spectroscopy ⬇️

scientific article published on February 25, 2013

Direct detection of lysine side chain NH3+ in protein-heparin complexes using NMR spectroscopy.

scientific article published on 2 January 2018

Direct evidence for deprotonation of a lysine side chain buried in the hydrophobic core of a protein.

scientific article

Discrete-State Kinetics Model for NMR-Based Analysis of Protein Translocation on DNA at Equilibrium

scientific article published on 19 September 2017

Dynamic Equilibria of Short-Range Electrostatic Interactions at Molecular Interfaces of Protein-DNA Complexes.

scientific article

Dynamics of Ionic Interactions at Protein-Nucleic Acid Interfaces

scientific article published on 26 August 2020

Dynamics of lysine side-chain amino groups in a protein studied by heteronuclear 1H−15N NMR spectroscopy.

scientific article published in February 2011

Effective strategy to assign ¹H- ¹⁵N heteronuclear correlation NMR signals from lysine side-chain NH3₃⁺ groups of proteins at low temperature.

scientific article

Ensemble approach for NMR structure refinement against (1)H paramagnetic relaxation enhancement data arising from a flexible paramagnetic group attached to a macromolecule

scientific article

Entropic Enhancement of Protein-DNA Affinity by Oxygen-to-Sulfur Substitution in DNA Phosphate.

scientific article

Experimental Evidence of Solvent-Separated Ion Pairs as Metastable States in Electrostatic Interactions of Biological Macromolecules

scientific article published on 11 December 2019

Gaussian Spectral-Density Function for Protein Internal Motions

scientific article published on 01 June 1996

Hydrogen-exchange kinetics studied through analysis of self-decoupling of nuclear magnetic resonance

scientific article published on 16 January 2020

Impact of two-bond N-N scalar couplings on N transverse relaxation measurements for arginine side chains of proteins

scientific article published on 29 May 2018

Influence of quasi-specific sites on kinetics of target DNA search by a sequence-specific DNA-binding protein

scientific article

Internal Motions of Basic Side Chains of the Antennapedia Homeodomain in the Free and DNA-Bound States

scientific article

Intramolecular domain-domain association/dissociation and phosphoryl transfer in the mannitol transporter of Escherichia coli are not coupled

scholarly article

KUJIRA, a package of integrated modules for systematic and interactive analysis of NMR data directed to high-throughput NMR structure studies.

scientific article

Lysines and Arginines play non-redundant roles in mediating chemokine-glycosaminoglycan interactions

scientific article published in Scientific Reports

Mobility of Histidine Side Chains Analyzed with 15N NMR Relaxation and Cross-Correlation Data: Insight into Zinc-Finger-DNA Interactions

scientific article published on 18 April 2019

NMR Methods for Characterizing the Basic Side Chains of Proteins: Electrostatic Interactions, Hydrogen Bonds, and Conformational Dynamics

scientific article published on 27 September 2018

NMR Observation of Intermolecular Hydrogen Bonds between Protein Tyrosine Side-Chain OH and DNA Phosphate Groups

scientific article published on 30 January 2020

NMR Scalar Couplings across Intermolecular Hydrogen Bonds between Zinc-Finger Histidine Side Chains and DNA Phosphate Groups

scientific article

NMR Studies of Translocation of the Zif268 Protein between Its Target DNA Sites

scientific article published on 01 September 2010

NMR structural and kinetic characterization of a homeodomain diffusing and hopping on nonspecific DNA.

scholarly article

NMR studies on the dynamics of hydrogen bonds and ion pairs involving lysine side chains of proteins

scientific article published on January 2013

Observing in-phase single-quantum 15N multiplets for NH2/NH3+ groups with two-dimensional heteronuclear correlation spectroscopy

scientific article

Physicochemical Properties of Ion Pairs of Biological Macromolecules

scientific article

Positive and negative impacts of nonspecific sites during target location by a sequence-specific DNA-binding protein: origin of the optimal search at physiological ionic strength.

scientific article published on 16 May 2014

Potential role of DNA methylation as a facilitator of target search processes for transcription factors through interplay with methyl-CpG-binding proteins.

scientific article published on 9 May 2017

Practical aspects of (1)H transverse paramagnetic relaxation enhancement measurements on macromolecules.

scientific article

Quantifying and visualizing weak interactions between anions and proteins

scientific article published on 01 January 2021

Racemic phosphorothioate as a tool for NMR investigations of protein-DNA complexes

scientific article published on 18 July 2020

Real-time Kinetics of High-mobility Group Box 1 (HMGB1) Oxidation in Extracellular Fluids Studied by in Situ Protein NMR Spectroscopy ⬇️

scientific article published on February 27, 2013

Redox properties of the A-domain of the HMGB1 protein.

scientific article

Regional polysterism in the GTP-bound form of the human c-Ha-Ras protein

scientific article

Regulation of transcription factors via natural decoys in genomic DNA.

scientific article published on 06 July 2016

Residence Times of Molecular Complexes in Solution from NMR Data of Intermolecular Hydrogen-Bond Scalar Coupling

scientific article

Sensitivity improvement for correlations involving arginine side-chain Nε/Hε resonances in multi-dimensional NMR experiments using broadband 15N 180° pulses

scientific article published on 12 October 2006

Signature of mobile hydrogen bonding of lysine side chains from long-range 15N-13C scalar J-couplings and computation.

scientific article published on 27 May 2011

Solution structure of the Eps15 homology domain of a human POB1 (partner of RalBP1)

scientific article

Speed-stability paradox in DNA-scanning by zinc-finger proteins.

scientific article published on 14 February 2013

Stereospecific Effects of Oxygen-to-Sulfur Substitution in DNA Phosphate on Ion Pair Dynamics and Protein-DNA Affinity

scientific article

Stopped-flow fluorescence kinetic study of protein sliding and intersegment transfer in the target DNA search process

scientific article

Structural impact of complete CpG methylation within target DNA on specific complex formation of the inducible transcription factor Egr-1.

scientific article published on 19 May 2015

Structure of sortase, the transpeptidase that anchors proteins to the cell wall of Staphylococcus aureus

scientific article

Structure-independent analysis of the breadth of the positional distribution of disordered groups in macromolecules from order parameters for long, variable-length vectors using NMR paramagnetic relaxation enhancement

scientific article

TROSY-based z-exchange spectroscopy: application to the determination of the activation energy for intermolecular protein translocation between specific sites on different DNA molecules

scientific article published on 5 October 2007

Temperature dependence of internal motions of protein side-chain NH3(+) groups: insight into energy barriers for transient breakage of hydrogen bonds

scientific article

Theory, practice, and applications of paramagnetic relaxation enhancement for the characterization of transient low-population states of biological macromolecules and their complexes.

scientific article

Thermodynamic Additivity for Impacts of Base-Pair Substitutions on Association of the Egr-1 Zinc-Finger Protein with DNA.

scientific article

Visualization of transient encounter complexes in protein-protein association.

scientific article

[Intermediates in macromolecular binding process as revealed by new NMR methods]

scientific article published on 01 August 2007

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